Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Xbp1

Cell type

Cell type Class
Liver
Cell type
Liver
MeSH Description
A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Attributes by original data submitter

Sample

source_name
LIVER
gender
male
strain
C57BL/6J
age
8-12 weeks of age
genotype
WT
time
CT40
tissue
liver
chip antibody
anti-XBP1s (biolegend 6105)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The DNA libraries were prepared at Univerisity of Pittsburgh and sequenced at Gene by Gene per standard protocols. DNA libraries were prepared with Ovation® Ultralow V2 DNA-Seq library preparation kit (NuGen) using 1ng input DNA. The size selection for libraries were performed using SPRIselect beads (Beckman Coulter) and purity of the libraries were analyzed using the High Sensitivity DNA chip on Bioanalyzer 2100 (Agilent). The prepared libraries pooled and sequenced using Nova-Seq 6000 SP flowcell (Illumina), generating ~30 million 75 bp single-end reads per samples.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

mm10

Number of total reads
64813100
Reads aligned (%)
96.4
Duplicates removed (%)
8.6
Number of peaks
444 (qval < 1E-05)

mm9

Number of total reads
64813100
Reads aligned (%)
96.3
Duplicates removed (%)
8.7
Number of peaks
438 (qval < 1E-05)

Base call quality data from DBCLS SRA